--- layout: default title: Xons/scRNAseq.Demo ---
single cell RNAseq
single end
non-stranded
50 bp reads
Drosophila
count >= 1
expression of detected genes (count>=1)
Mapped reads >= 1 million
Percentage of mitochondrial genes <= 10%
Detected gene >= 4000
This is depends on how rare the sub-population we are looking for. Here we hope the population are more than 5 cells. Commonly expressed gene (count>=5) in cells >=5 and <= (total cell - 5)
Use protein coding gene only for downstream analysis.
use RUV package
Marker gene expression